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An improved understanding of TNFL/TNFR interactions using structure-based classifications
- Source :
- Trends in Biochemical Sciences; Vol 37
- Publication Year :
- 2012
- Publisher :
- Elsevier BV, 2012.
-
Abstract
- Tumor Necrosis Factor Ligand (TNFL)-Tumor Necrosis Factor Receptor (TNFR) interactions control key cellular processes; however, the molecular basis of the specificity of these interactions remains poorly understood. Using the T-RMSD (tree based on root mean square deviation), a newly developed structure-based sequence clustering method, we have re-analyzed the available structural data to re-interpret the interactions between TNFLs and TNFRs. This improves the classification of both TNFLs and TNFRs, such that the new groups defined here are in much stronger agreement with structural and functional features than existing schemes. Our clustering approach also identifies traces of a convergent evolutionary process for TNFLs and TNFRs, leading us to propose the co-evolution of TNFLs and the third cysteine rich domain (CRD) of large TNFRs.
- Subjects :
- 0303 health sciences
Functional features
Computational biology
Biology
Ligands
Bioinformatics
Biochemistry
Receptors, Tumor Necrosis Factor
03 medical and health sciences
0302 clinical medicine
Tumor Necrosis Factors
Animals
Humans
Structure based
Protein Interaction Domains and Motifs
Tree based
Cluster analysis
Molecular Biology
Tumor necrosis factor receptor
Root-mean-square deviation
Phylogeny
030304 developmental biology
030215 immunology
Sequence clustering
Subjects
Details
- ISSN :
- 09680004
- Volume :
- 37
- Database :
- OpenAIRE
- Journal :
- Trends in Biochemical Sciences
- Accession number :
- edsair.doi.dedup.....67af37dab2997e7f297e2ea8c94e2bb5