1FLK | pdb_00001flk

MOLECULAR BASIS FOR CD40 SIGNALING MEDIATED BY TRAF3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 
    0.286 (Depositor), 0.234 (DCC) 
  • R-Value Work: 
    0.224 (Depositor), 0.238 (DCC) 
  • R-Value Observed: 
    0.224 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1FLK

This is version 1.3 of the entry. See complete history

Literature

Molecular basis for CD40 signaling mediated by TRAF3.

Ni, C.Z.Welsh, K.Leo, E.Chiou, C.K.Wu, H.Reed, J.C.Ely, K.R.

(2000) Proc Natl Acad Sci U S A 97: 10395-10399

  • DOI: https://doi.org/10.1073/pnas.97.19.10395
  • Primary Citation Related Structures: 
    1FLK, 1FLL

  • PubMed Abstract: 

    Tumor necrosis factor receptors (TNFR) are single transmembrane-spanning glycoproteins that bind cytokines and trigger multiple signal transduction pathways. Many of these TNFRs rely on interactions with TRAF proteins that bind to the intracellular domain of the receptors. CD40 is a member of the TNFR family that binds to several different TRAF proteins. We have determined the crystal structure of a 20-residue fragment from the cytoplasmic domain of CD40 in complex with the TRAF domain of TRAF3. The CD40 fragment binds as a hairpin loop across the surface of the TRAF domain. Residues shown by mutagenesis and deletion analysis to be critical for TRAF3 binding are involved either in direct contact with TRAF3 or in intramolecular interactions that stabilize the hairpin. Comparison of the interactions of CD40 with TRAF3 vs. TRAF2 suggests that CD40 may assume different conformations when bound to different TRAF family members. This molecular adaptation may influence binding affinity and specific cellular triggers.


  • Organizational Affiliation
    • Cancer Center, The Burnham Institute, La Jolla, CA 92037, USA.

Macromolecule Content 

  • Total Structure Weight: 51.77 kDa 
  • Atom Count: 3,252 
  • Modeled Residue Count: 410 
  • Deposited Residue Count: 456 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
TNF RECEPTOR ASSOCIATED FACTOR 3
A, B
228Homo sapiensMutation(s): 0 
EC: 2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for Q13114 (Homo sapiens)
Explore Q13114 
Go to UniProtKB:  Q13114
PHAROS:  Q13114
GTEx:  ENSG00000131323 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13114
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free:  0.286 (Depositor), 0.234 (DCC) 
  • R-Value Work:  0.224 (Depositor), 0.238 (DCC) 
  • R-Value Observed: 0.224 (Depositor) 
Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 84.53α = 90
b = 84.53β = 90
c = 319.5γ = 120
Software Package:
Software NamePurpose
AMoREphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-10-18
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2024-02-07
    Changes: Data collection, Database references