Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 12.81 kDa 
• Atom Count: 714 
• Modelled Residue Count: 87 
• Deposited Residue Count: 112 
• Unique protein chains: 1

1ICH

SOLUTION STRUCTURE OF THE TUMOR NECROSIS FACTOR RECEPTOR-1 DEATH DOMAIN

• PDB DOI: 10.2210/pdb1ICH/pdb
• BMRB: 5018

• Classification: APOPTOSIS
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2001-04-01 Released: 2002-04-01 
• Deposition Author(s): Sukits, S.F., Lin, L.-L., Malakian, K., Powers, R., Xu, G.-Y.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Literature

Solution structure of the tumor necrosis factor receptor-1 death domain.

Sukits, S.F., Lin, L.L., Hsu, S., Malakian, K., Powers, R., Xu, G.Y.

(2001) J Mol Biol 310: 895-906

• PubMed: 11453696 
• DOI: 10.1006/jmbi.2001.4790
• Primary Citation of Related Structures:  
  1ICH


• PubMed Abstract: 
  

Tumor necrosis factor receptor-1 death domain (TNFR-1 DD) is the intracellular functional domain responsible for the receptor signaling activities. The solution structure of the R347K mutant of TNFR-1 DD was solved by NMR spectroscopy. A total of 20 structures were calculated by means of hybrid distance geometry-simulated annealing using a total of 1167 distance constraints and 117 torsion angle constraints. The atomic rms distribution about the mean coordinate positions for the 20 structures for residues composing the secondary structure region is 0.40 A for the backbone atoms and 1.09 A for all atoms. The structure consists of six antiparallel alpha-helices arranged in a similar fashion to the other members of the death domain superfamily. The secondary structure and three-dimensional structure of R347K TNFR1-DD are very similar to the secondary structure and deduced topology of the R347A TNFR1-DD mutant. Mutagenesis studies identified critical residues located in alpha2 and part of alpha3 and alpha4 that are crucial for self-interaction and interaction with TRADD. Structural superposition with previously solved proteins in the death domain superfamily reveals that the major differences between the structures reside in alpha2, alpha3, and alpha4. Interestingly, these regions correspond to the binding sites of TNFR1-DD, providing a structural basis for the specificity of death domain interactions and its subsequent signaling event.

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Organizational Affiliation: 

Department of Biological Chemistry, Wyeth Research, Cambridge, MA 02140, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TUMOR NECROSIS FACTOR RECEPTOR-1	A	112	Homo sapiens	Mutation(s): 1  Gene Names: TNFRSF1A, TNFAR, TNFR1
UniProt & NIH Common Fund Data Resources
Find proteins for P19438 (Homo sapiens) Explore P19438  Go to UniProtKB:  P19438
PHAROS:  P19438

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 1 
• OLDERADO: 1ICH Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-04-01 
• Released Date: 2002-04-01 
Deposition Author(s): Sukits, S.F., Lin, L.-L., Malakian, K., Powers, R., Xu, G.-Y.

Revision History  

• Version 1.0: 2002-04-01
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-10-27
  Changes: Data collection, Database references, Derived calculations