1OQE | pdb_00001oqe

Crystal structure of sTALL-1 with BAFF-R


Experimental Data Snapshot

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.50 Å
  • R-Value Free:&nbsp
    0.259 (Depositor), 0.270 (DCC)&nbsp
  • R-Value Work:&nbsp
    0.244 (Depositor), 0.250 (DCC)&nbsp
  • R-Value Observed:&nbsp
    0.264&nbsp(Depositor)&nbsp

wwPDB Validation&nbsp &nbsp3D Report&nbspFull Report


This is version 1.4 of the entry. See complete&nbsphistory.&nbsp


Literature

Ligand-receptor binding revealed by the TNF family member TALL-1.

Liu, Y.,&nbspHong, X.,&nbspKappler, J.,&nbspJiang, L.,&nbspZhang, R.,&nbspXu, L.,&nbspPan, C.H.,&nbspMartin, W.E.,&nbspMurphy, R.C.,&nbspShu, H.B.,&nbspDai, S.,&nbspZhang, G.

(2003) Nature&nbsp423: 49-56

  • DOI:&nbsphttps://doi.org/10.1038/nature01543
  • Primary Citation of Related Structures: &nbsp
    1OQD, 1OQE

  • PubMed Abstract:&nbsp

    The tumour necrosis factor (TNF) ligand TALL-1 and its cognate receptors, BCMA, TACI and BAFF-R, were recently identified as members of the TNF superfamily, which are essential factors contributing to B-cell maturation. The functional, soluble fragment of TALL-1 (sTALL-1) forms a virus-like assembly for its proper function. Here we determine the crystal structures of sTALL-1 complexed with the extracellular domains of BCMA and BAFF-R at 2.6 and 2.5 A, respectively. The single cysteine-rich domain of BCMA and BAFF-R both have saddle-like architectures, which sit on the horseback-like surface formed by four coil regions on each individual sTALL-1 monomer. Three novel structural modules, D2, X2 and N, were revealed from the current structures. Sequence alignments, structural modelling and mutagenesis revealed that one disulphide bridge in BAFF-R is critical for determining the binding specificity of the extracellular domain eBAFF-R to TALL-1 instead of APRIL, a closely related ligand of TALL-1, which was confirmed by binding experiments in vitro.


  • Organizational Affiliation:&nbsp

    Integrated Department of Immunology, National Jewish Medical and Research Center, Denver, Colorado 80206, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tumor necrosis factor ligand superfamily member 13B, soluble form
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J
144Homo sapiensMutation(s): 0&nbsp
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspQ9Y275&nbsp(Homo sapiens)
Explore&nbspQ9Y275&nbsp
Go to UniProtKB: &nbspQ9Y275
PHAROS: &nbspQ9Y275
GTEx: &nbspENSG00000102524&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y275
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Tumor necrosis factor receptor superfamily member 13C
K, L, M, N, O
K, L, M, N, O, P, Q, R
31Homo sapiensMutation(s): 0&nbsp
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspQ96RJ3&nbsp(Homo sapiens)
Explore&nbspQ96RJ3&nbsp
Go to UniProtKB: &nbspQ96RJ3
PHAROS: &nbspQ96RJ3
GTEx: &nbspENSG00000159958&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96RJ3
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.50 Å
  • R-Value Free:&nbsp 0.259 (Depositor), 0.270 (DCC)&nbsp
  • R-Value Work:&nbsp 0.244 (Depositor), 0.250 (DCC)&nbsp
  • R-Value Observed:&nbsp0.264&nbsp(Depositor)&nbsp
Space Group:&nbspP 63 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 233.261α = 90
b = 233.261β = 90
c = 211.286γ = 120
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
CNSphasing

Structure Validation

View&nbspFull Validation Report



Entry History&nbsp

Deposition Data

  • Released Date:&nbsp2003-05-13&nbsp
  • Deposition Author(s):&nbspZhang, G.

Revision History  (Full details and data files)

  • Version 1.0: 2003-05-13
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-01-31
    Changes: Experimental preparation
  • Version 1.4: 2024-11-13
    Changes: Data collection, Database references, Structure summary