8ZUJ: PDB entry 8ZUJ

Pentagonal cluster of BAFF-BAFFR ectodomain complex. Determined by electron microscopy at 2.58 Å resolution. Released 11 Jun 2025.

Method: Electron microscopy
Resolution: 2.58 Å
Organism: Homo sapiens
Chains: 30
Atoms: 19,830
Mol. weight: 419.81 kDa
Released: 11 Jun 2025

Explore 8ZUJ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8ZUJ contains 30 α-helices and 225 β-strands across 30 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chains a, A, B, C, G, H, I, M, N, O, S, T, U, Y and Z: 1 helix, 2 β-strands

Element	Residues	Length	Sheet
β-strand	23-26	4	2
β-strand	31-34	4	2
α-helix	35-37	3

Chains b, c, d, D, E, F, J, K, L, P, Q, R, V, W and X: 1 helix, 13 β-strands

Element	Residues	Length	Sheet
β-strand	146-151	6	4
α-helix	156-157	2
β-strand	158-159	2	5
β-strand	164-165	2	5
β-strand	168-174	7	4
β-strand	178-180	3	5
β-strand	185-187	3	5
β-strand	191-201	11	4
β-strand	207-215	9	5
β-strand	226-235	10	5
β-strand	243-253	11	4
β-strand	258-263	6	5
β-strand	270	1	4
β-strand	278-283	6	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Tumor necrosis factor receptor superfamily member 13C	A, B, C, G, H, I, M, N, O, S, T, U, Y, Z, a	protein	101	Homo sapiens	Q96RJ3 (AlphaFold model)
Tumor necrosis factor ligand superfamily member 13b, soluble form	D, E, F, J, K, L, P, Q, R, V, W, X, b, c, d	protein	157	Homo sapiens	Q9Y275 (AlphaFold model)

Sequence of entity 1 (A, B, C, G, H, I, M, N, O, S, T, U, Y, Z, a), FASTA

>8ZUJ_1 Tumor necrosis factor receptor superfamily member 13C (chains A, B, C, G, H, I, M, N, O, S, T, U, Y, Z, a)
ADPDYKDDDDKRRGPRSLRGRDAPAPTPCVPAECFDLLVRHCVACGLLRTPRPKPAGASS
PAPRTALQPQESVGAGAGEAALPLPGLLGGGGSHHHHHHHH

Sequence of entity 2 (D, E, F, J, K, L, P, Q, R, V, W, X, b, c, d), FASTA

>8ZUJ_2 Tumor necrosis factor ligand superfamily member 13b, soluble form (chains D, E, F, J, K, L, P, Q, R, V, W, X, b, c, d)
GSGGSAVQGPEETVTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVK
ETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSA
GIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL

Primary citation

Highly ordered clustering of TNF alpha and BAFF ligand-receptor-intracellular adaptor complexes on a lipid membrane. Lim, C.S., Lee, J., Kim, J.W. et al. Nat Commun (2025) 16:5551-5551. DOI 10.1038/s41467-025-61271-6 · PubMed

Other PDB entries of the same protein (UniProt Q96RJ3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1OQE 2.5 Å, Crystal structure of sTALL-1 with BAFF-R
2HFG 2.61 Å, Crystal structure of hBR3 bound to CB3s-Fab
8ZUK 2.83 Å, Cluster structure of the BAFF-BAFFR-TRAF3 complex
3V56 3.0 Å, Re-refinement of PDB entry 1OSG - Complex between BAFF and a BR3 derived peptide…
4V46 3.3 Å, Crystal structure of the BAFF-BAFF-R complex
1MPV Structure of bhpBR3, the BAFF-binding loop of BR3 embedded in a beta-hairpin peptide
1OSX Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)

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