› 4j6g

X-ray diffraction
2.4Å resolution

CRYSTAL STRUCTURE OF LIGHT AND DcR3 COMPLEX

Released:
DOI: 10.2210/pdb4j6g/pdb
PDB entry 4j6g coloured by chain, front view.
PDB entry 4j6g coloured by chain, side view.
PDB entry 4j6g coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Mechanistic basis for functional promiscuity in the TNF and TNF receptor superfamilies: structure of the LIGHT:DcR3 assembly.
Liu W, Zhan C, Cheng H, Kumar PR, Bonanno JB, Nathenson SG, Almo SC
Structure 22 1252-1262 (2014)
PMID: 25087510

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
hetero dodecamer (preferred)
hetero hexamer
Assembly name:
PDBe Complex ID:
PDB-CPX-128994 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Tumor necrosis factor ligand superfamily member 14, soluble form Chains: A, B
Molecule details ›
Chains: A, B
Length: 165 amino acids
Theoretical weight: 18.19 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: O43557 (Residues: 83-240; Coverage: 66%)
Gene names: HVEML, LIGHT, TNFSF14, UNQ391/PRO726
Sequence domains: TNF(Tumour Necrosis Factor) family
Structure domains: Jelly Rolls
Tumor necrosis factor receptor superfamily member 6B Chains: C, D
Molecule details ›
Chains: C, D
Length: 174 amino acids
Theoretical weight: 19.04 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: O95407 (Residues: 30-195; Coverage: 61%)
Gene names: DCR3, TNFRSF6B, TR6, UNQ186/PRO212
Sequence domains: TNFR/NGFR cysteine-rich region
Structure domains: Tumor Necrosis Factor Receptor, subunit A, domain 2

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
3 bound ligands:
Ligand CL 2 x CL
Ligand MG 2 x MG
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P213
Unit cell:
a: 149.058Å b: 149.058Å c: 149.058Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.194 0.232
Expression system: Drosophila

Quick links

Citations

5 review citations

The TNF Receptor Superfamily in Co-stimulating and Co-inhibitory Responses.
Ward-Kavanagh et al. (2016)
4 more

6 mentions without citation

Structure of the 4-1BB/4-1BBL complex and distinct binding and functional properties of utomilumab and urelumab.
Chin et al. (2018)
5 more